How Ancient RNA Survives and What We Can Learn from It

Overview

Journal Nat Rev Mol Cell Biol

Specialties Cell Biology
Molecular Biology

Date 2024 Mar 29

PMID 38548931

Authors

Marc R Friedlander

M Thomas P Gilbert

Affiliations

Soon will be listed here.

References

Rollo F . Characterisation by molecular hybridization of RNA fragments isolated from ancient (1400 B.C.) seeds. Theor Appl Genet. 2013; 71(2):330-3. DOI: 10.1007/BF00252076. View

Marmol-Sanchez E, Fromm B, Oskolkov N, Pochon Z, Kalogeropoulos P, Eriksson E . Historical RNA expression profiles from the extinct Tasmanian tiger. Genome Res. 2023; 33(8):1299-1316. PMC: 10552650. DOI: 10.1101/gr.277663.123. View

Worobey M . Phylogenetic evidence against evolutionary stasis and natural abiotic reservoirs of influenza A virus. J Virol. 2008; 82(7):3769-74. PMC: 2268457. DOI: 10.1128/JVI.02207-07. View

Koopmans M, Monroe S, Coffield L, Zaki S . Optimization of extraction and PCR amplification of RNA extracts from paraffin-embedded tissue in different fixatives. J Virol Methods. 1993; 43(2):189-204. PMC: 7119522. DOI: 10.1016/0166-0934(93)90076-4. View

Krafft A, Lichy J, Lipscomb T, Klaunberg B, Kennedy S, Taubenberger J . Postmortem diagnosis of morbillivirus infection in bottlenose dolphins (Tursiops truncatus) in the Atlantic and Gulf of Mexico epizootics by polymerase chain reaction-based assay. J Wildl Dis. 1995; 31(3):410-5. DOI: 10.7589/0090-3558-31.3.410. View

Tumpey T, Garcia-Sastre A, Taubenberger J, Palese P, Swayne D, Pantin-Jackwood M . Pathogenicity of influenza viruses with genes from the 1918 pandemic virus: functional roles of alveolar macrophages and neutrophils in limiting virus replication and mortality in mice. J Virol. 2005; 79(23):14933-44. PMC: 1287592. DOI: 10.1128/JVI.79.23.14933-14944.2005. View

Morlan J, Qu K, Sinicropi D . Selective depletion of rRNA enables whole transcriptome profiling of archival fixed tissue. PLoS One. 2012; 7(8):e42882. PMC: 3416766. DOI: 10.1371/journal.pone.0042882. View

Dux A, Lequime S, Patrono L, Vrancken B, Boral S, Gogarten J . Measles virus and rinderpest virus divergence dated to the sixth century BCE. Science. 2020; 368(6497):1367-1370. PMC: 7713999. DOI: 10.1126/science.aba9411. View

Fordyce S, Avila-Arcos M, Rasmussen M, Cappellini E, Romero-Navarro J, Wales N . Deep sequencing of RNA from ancient maize kernels. PLoS One. 2013; 8(1):e50961. PMC: 3543400. DOI: 10.1371/journal.pone.0050961. View

10.

Smith O, Clapham A, Rose P, Liu Y, Wang J, Allaby R . Genomic methylation patterns in archaeological barley show de-methylation as a time-dependent diagenetic process. Sci Rep. 2014; 4:5559. PMC: 4081896. DOI: 10.1038/srep05559. View

11.

Smith O, Clapham A, Rose P, Liu Y, Wang J, Allaby R . A complete ancient RNA genome: identification, reconstruction and evolutionary history of archaeological Barley Stripe Mosaic Virus. Sci Rep. 2014; 4:4003. PMC: 3915304. DOI: 10.1038/srep04003. View

12.

Keller A, Kreis S, Leidinger P, Maixner F, Ludwig N, Backes C . miRNAs in Ancient Tissue Specimens of the Tyrolean Iceman. Mol Biol Evol. 2016; 34(4):793-801. DOI: 10.1093/molbev/msw291. View

13.

Shaw B, Burrell C, Green D, Navarro-Martinez A, Scott D, Daroszewska A . Molecular insights into an ancient form of Paget's disease of bone. Proc Natl Acad Sci U S A. 2019; 116(21):10463-10472. PMC: 6535003. DOI: 10.1073/pnas.1820556116. View

14.

Smith O, Dunshea G, Sinding M, Fedorov S, Germonpre M, Bocherens H . Ancient RNA from Late Pleistocene permafrost and historical canids shows tissue-specific transcriptome survival. PLoS Biol. 2019; 17(7):e3000166. PMC: 6667121. DOI: 10.1371/journal.pbio.3000166. View

15.

Fromm B, Tarbier M, Smith O, Marmol-Sanchez E, Dalen L, Gilbert T . Ancient microRNA profiles of a 14,300-year-old canid samples confirm taxonomic origin and give glimpses into tissue-specific gene regulation from the Pleistocene. RNA. 2020; . PMC: 7901840. DOI: 10.1261/rna.078410.120. View